phenoTest
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see phenoTest.
Tools to test association between gene expression and phenotype in a way that is efficient, structured, fast and scalable. We also provide tools to do GSEA (Gene set enrichment analysis) and copy number variation.
Bioconductor version: 3.9
Tools to test correlation between gene expression and phenotype in a way that is efficient, structured, fast and scalable. GSEA is also provided.
Author: Evarist Planet
Maintainer: Evarist Planet <evarist.planet at epfl.ch>
Citation (from within R, enter
citation("phenoTest")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("phenoTest")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("phenoTest")| Manual for the phenoTest library | R Script | |
| Reference Manual |
Details
| biocViews | Classification, Clustering, DifferentialExpression, Microarray, MultipleComparison, Software |
| Version | 1.32.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) (13 years) |
| License | GPL (>=2) |
| Depends | R (>= 2.12.0), Biobase, methods, annotate, Heatplus, BMA, ggplot2 |
| Imports | survival, limma, Hmisc, gplots, Category, AnnotationDbi, hopach, biomaRt, GSEABase, genefilter, xtable, annotate, mgcv, SNPchip, hgu133a.db, HTSanalyzeR, ellipse |
| System Requirements | |
| URL |
See More
| Suggests | GSEABase, KEGG.db, GO.db |
| Linking To | |
| Enhances | parallel, org.Ce.eg.db, org.Mm.eg.db, org.Rn.eg.db, org.Hs.eg.db, org.Dm.eg.db |
| Depends On Me | |
| Imports Me | canceR |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | phenoTest_1.32.0.tar.gz |
| Windows Binary | phenoTest_1.32.0.zip |
| Mac OS X 10.11 (El Capitan) | phenoTest_1.32.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/phenoTest |
| Source Repository (Developer Access) | git clone [email protected]:packages/phenoTest |
| Bioc Package Browser | https://code.bioconductor.org/browse/phenoTest/ |
| Package Short Url | https://bioconductor.org/packages/phenoTest/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |